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Pipeline Nextflow

Some scripts for the methylation analysis of the ChickStress project.

UTOPIA: an automatically UpdaTed, cOmPlete and consistent ITS reference dAtabase

scripts to remap markers as pairs of bait sequences or context sequences.

FROGS is a galaxy/CLI workflow designed to produce an OTUs count matrix from high depth sequencing amplicon data.

"clariTE.pl" is a program that post process the xm output file of RepeatMasker.

A gene finding software for eukaryotic and prokaryotic organisms.

PAQmiR : Prediction Annotation and Quantification of miRNA with miRDeep2

NGSPipelines integrates pipelines and user interfaces to help biologists to analyse data outputed from biological applications such as RNA-seq, sRNA-seq, Chip-Seq, BS-seq, and so on.

DRAP is a De novo Rna Assembly Pipeline allowing to clean and filter RNA-seq De novo assemblers results to get the most compact and complete set of transcripts.

Tutorial example for creation of a snakemake workflow using a singularity container on a hpc